recipe pavfinder

PAVFinder is a Python package that detects structural variants from de novo assemblies.

Homepage:

https://github.com/bcgsc/pavfinder

License:

GPL-3.0

Recipe:

/pavfinder/meta.yaml

Links:

doi: 10.1186/s12920-018-0402-6, doi: 10.1093/bioinformatics/btz902

package pavfinder

Versions:

1.8.5-0

Depends:

• bash

• biobloomtools

• biopython

• blast

• bwa

• gmap

• intspan >=0.701

• make

• pybedtools >=0.6.9

• pysam >=0.8.1

• python >=3

• rnabloom

• ruffus

• samtools

• transabyss

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install pavfinder

and update with:

conda update pavfinder

or use the docker container:

docker pull quay.io/biocontainers/pavfinder:<tag>

(see pavfinder/tags for valid values for <tag>)

Download stats

Link to this page

Render an badge with the following MarkDown:

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